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mmu_circBrd8_173
Basic information of circular RNA
PanCircBase ID:
mmu_circBrd8_173
mm39_Chr. Position ID:
chr18|34747500|34747850|-
Gene name:
Brd8
Transcript:
ENSMUST00000003876.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
5,4
Exon/intron offsets:
0,300
Genomic length:
350
Exon/intron sizes in nt:
123,50
Flanking exon/introns:
chr18:34746349-34747500|chr18:34747850-34749717
Splice length:
173
Other database IDs:
circBase: mmu_circ_0007262, CIRCpedia: MMU_CIRCpedia_17398, circAtlas: mmu-Brd8_0002
Human Ortholog IDs:
Mature spliced Sequence:
CATTGTGCTTCTCAGTATTCTGAGCTCTTAGAGACTACTGAGACTCCAAAACGGAAACGGGGTGAAAAAGGAGAAGTGGTAGAAACTGTTGAAGATGTTATTGTTCGCAAACTGACTGCTGAGAGAGTTGAAGAACTGAAGAAAGTCATAAAGGAGACACAGGAGAGATACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCGCAAACTGACTGCTGAGA
59.61
CCTTTTTCACCCCGTTTCCG
59.69
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTTCGCAAACTGACTGCTG
59.34
CCTTTTTCACCCCGTTTCCG
59.69
143
PCR template sequence:
GTTGAAGATGTTATTGTTCGCAAACTGACTGCTGAGAGAGTTGAAGAACTGAAGAAAGTCATAAAGGAGACACAGGAGAGATACAGCATTGTGCTTCTCAGTATTCTGAGCTCTTAGAGACTACTGAGACTCCAAAACGGAAACGGGGTGAAAAAGGAGAAGTGGTAGAAAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-223-3p(1), mmu-miR-200c-3p(1), mmu-miR-199b-3p(1), mmu-miR-199a-3p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
AGGAGAGATACAGCATTGTGCTTCTC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.539745765
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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